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sr320 / ceabigr

Workshop on genomic data integration with a emphasis on epigenetic data (FHL 2022)
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Test code reproducibility for RNAseq data #50

Closed kubu4 closed 2 years ago

kubu4 commented 2 years ago

Well, it appears I may have submarined a decent chunk of CEABIGR (temporarily).

Initial RNAseq alignments (BAM) for individuals was performed using untrimmed reads!

So, any analysis (including my previous ballgown analyses) should be disregarded.

I'm in the process of re-running things. Will report back here when things are ready to test everyone's code reproducibility!

So sorry to everyone involved in this!

sr320 commented 2 years ago

No problem.. most of the work is still in the phase of developing the pipelines, so it can continue, and simple insert new files. Noting there is a contingent that beliefs trimming in RNAseq is not necessary.

sr320 commented 2 years ago

see paper https://academic.oup.com/nargab/article/2/3/lqaa068/5901066